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2019-04-23	Jim Procter	JAL-3130 make sure only libDistDir/*.jar are added...	commit \| commitdiff \| tree
2019-04-23	Jim Procter	Merge branch 'develop' into bug/JAL-3224_getdown_changed_to_...	commit \| commitdiff \| tree
2019-04-23	Jim Procter	JAL-1929 JAL-3224 getdown artefacts staged as getdown...	commit \| commitdiff \| tree
2019-04-23	Jim Procter	JAL-1929 JAL-3224 getdown channel structure is {build...	commit \| commitdiff \| tree
2019-04-22	Jim Procter	JAL-3224 JAL-3196 still trying to specify projectFile...	commit \| commitdiff \| tree
2019-04-22	Jim Procter	JAL-3224 JAL-3196 still trying to specify projectFile...	commit \| commitdiff \| tree
2019-04-22	Jim Procter	JAL-3224 JAL-3196 specify file object in projectFile...	commit \| commitdiff \| tree
2019-04-22	Jim Procter	JAL-3130 JAL-3224 patch URL paths to point to www.jalview...	commit \| commitdiff \| tree
2019-04-22	Jim Procter	JAL-3130 provide absolute module path as J11 compile...	commit \| commitdiff \| tree
2019-04-22	Jim Procter	Merge branch 'jims/JAL-3130_Java11_Gradle_publishing...	commit \| commitdiff \| tree
2019-04-17	Jim Procter	JAL-3111 fix 2.11 html anchor in docs	commit \| commitdiff \| tree
2019-04-17	Jim Procter	Merge branch 'documentation/JAL-3111_release_211' into...	commit \| commitdiff \| tree
2019-04-17	Jim Procter	JAL-3111 Jalview 2.11 what’s New and estimated release...	commit \| commitdiff \| tree
2019-04-17	Jim Procter	JAL-3111 tweak PCA documentation	commit \| commitdiff \| tree
2019-04-17	Jim Procter	Merge branch 'develop' into documentation/JAL-3111_release_211	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 tidy up system.output	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 call Jalview via the Test JVM’s JAVA_HOME...	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 refactored ‘clover’ to ‘use_clover’ since...	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 JAL-1889 reportCurrentWorkingDirectory test...	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 JAL-1889 report absolute paths for CommandLineTests	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 JAL-1889 report absolute paths for CommandLineTests	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3130 JAL-1889 report absolute paths for CommandLineTests	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-3196 change default are resource properties to...	commit \| commitdiff \| tree
2019-04-16	Jim Procter	Reinstate imports from "JAL-1889 JAL-3130 patch broken...	commit \| commitdiff \| tree
2019-04-16	Jim Procter	JAL-1189 JAL-3130 patch broken tests	commit \| commitdiff \| tree
2019-04-14	Jim Procter	JAL-3130 write clover.xml during cloverReport phase	commit \| commitdiff \| tree
2019-04-14	Jim Procter	JAL-3130 make sure testng-results.xml is generated	commit \| commitdiff \| tree
2019-04-12	Jim Procter	JAL-3130 specify module list when launching new Jalview...	commit \| commitdiff \| tree
2019-04-12	Jim Procter	JAL-3130 instrument main and compile separately to...	commit \| commitdiff \| tree
2019-04-12	Jim Procter	JAL-3130 gradle test now runs open clover 4.3.1 and...	commit \| commitdiff \| tree
2019-04-11	Jim Procter	Merge branch 'develop' into task/JAL-3130_Java_11_investigat...	commit \| commitdiff \| tree
2019-04-11	Jim Procter	JAL-3130 ensure J11 libs/modules are added when building...	commit \| commitdiff \| tree
2019-04-11	Jim Procter	JAL-3130 clean up eclipse class path for dependencies...	commit \| commitdiff \| tree
2019-03-29	Jim Procter	JAL-3111 Disable the pubapplet target in build.xml...	commit \| commitdiff \| tree
2019-03-28	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2019-03-28	Jim Procter	JAL-3111 biojava dependencies	commit \| commitdiff \| tree
2019-03-28	Jim Procter	JAL-3111 fix libquagua dependency paths - needs to...	commit \| commitdiff \| tree
2019-03-28	Jim Procter	JAL-3111 fix jabaws dependency name in IA config	commit \| commitdiff \| tree
2019-03-28	Jim Procter	JAL-3111 intervalstore library on IA classpath	commit \| commitdiff \| tree
2019-03-28	Jim Procter	JAL-3111 typo in IA config	commit \| commitdiff \| tree
2019-03-28	Jim Procter	JAL-3111 update InstallAnywhere dependencies for changed...	commit \| commitdiff \| tree
2019-03-07	Jim Procter	JAL-3127 set ‘updateStructures’ flag for viewports...	commit \| commitdiff \| tree
2019-03-04	Jim Procter	Merge branch 'develop' into documentation/JAL-3111_release_211	commit \| commitdiff \| tree
2019-03-04	Jim Procter	release notes for JAL-1767 JAL-2647 JAL-3198 JAL-3200...	commit \| commitdiff \| tree
2019-02-28	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2019-02-28	Jim Procter	Merge branch 'feature/JAL-3141_backupfiles_for211'...	commit \| commitdiff \| tree
2019-01-18	Jim Procter	Merge branch 'feature/JAL-3063jaxbNoCastor' into feature...	commit \| commitdiff \| tree
2019-01-18	Jim Procter	Merge branch 'develop' into feature/JAL-3063jaxbNoCastor	commit \| commitdiff \| tree
2019-01-17	Jim Procter	JAL-3116 clear out whitespace when materialising Sequence...	commit \| commitdiff \| tree
2019-01-16	Jim Procter	Merge branch 'feature/JAL-3063jaxbNoCastor' into develop	commit \| commitdiff \| tree
2019-01-16	Jim Procter	Merge branch 'features/pca_jaxb_datasetrefs_JAL-3171_JAL...	commit \| commitdiff \| tree
2019-01-15	Jim Procter	JAL-1767 test that changing view association for PCA...	commit \| commitdiff \| tree
2019-01-15	Jim Procter	JAL-1767 refactor associated view logic to public method...	commit \| commitdiff \| tree
2019-01-15	Jim Procter	JAL-1767 patch buggy PCA view association test	commit \| commitdiff \| tree
2019-01-09	Jim Procter	JAL-1767 failing test to check if the PCA view association...	commit \| commitdiff \| tree
2019-01-09	Jim Procter	Merge branch 'feature/JAL-3063JAXB' into features/pca_jaxb_d...	commit \| commitdiff \| tree
2019-01-09	Jim Procter	Merge branch 'feature/JAL-3063JAXB' into feature/JAL...	commit \| commitdiff \| tree
2019-01-09	Jim Procter	JAL-3063 remove stale JAXB binding POJO	commit \| commitdiff \| tree
2019-01-09	Jim Procter	Merge branch 'feature/JAL-3063JAXB' into features/pca_jaxb_d...	commit \| commitdiff \| tree
2019-01-09	Jim Procter	Merge branch 'feature/JAL-3063JAXB' into feature/JAL...	commit \| commitdiff \| tree
2019-01-09	Jim Procter	JAL-3063 - ant task for regenerating JAXB schema -...	commit \| commitdiff \| tree
2018-12-20	Jim Procter	JAL-1767 port save/load PCA panel to JAXB - JAL-3063	commit \| commitdiff \| tree
2018-12-20	Jim Procter	JAL-3171 JAL-3063 merge updates from JAL-1767	commit \| commitdiff \| tree
2018-12-19	Jim Procter	Merge branch 'features/JAL-1767pcaInProject' into bug...	commit \| commitdiff \| tree
2018-12-18	Jim Procter	JAL-2846 ahem - proper release note for this fix from...	commit \| commitdiff \| tree
2018-12-18	Jim Procter	JAL-3178 known defect in release notes	commit \| commitdiff \| tree
2018-12-17	Jim Procter	JAL-3111 JAL-2846 release notes	commit \| commitdiff \| tree
2018-12-17	Jim Procter	Merge branch 'bug/JAL-2846' into develop	commit \| commitdiff \| tree
2018-12-17	Jim Procter	JAL-3111 tweaked release notes and documented JAL-2864	commit \| commitdiff \| tree
2018-12-17	Jim Procter	Merge branch 'bug/JAL-2864nullOverviewCanvas' into...	commit \| commitdiff \| tree
2018-12-17	Jim Procter	JAL-2865 release notes	commit \| commitdiff \| tree
2018-12-17	Jim Procter	Merge branch 'bug/JAL-2750' into develop	commit \| commitdiff \| tree
2018-12-17	Jim Procter	Merge branch 'task/JAL-3174_fixed_filename_tests' into...	commit \| commitdiff \| tree
2018-12-17	Jim Procter	JAL-3174 backout un-needed stacktrace for exception...	commit \| commitdiff \| tree
2018-12-17	Jim Procter	Merge branch 'bug/JAL-2541cutRelocateFeatures' into...	commit \| commitdiff \| tree
2018-12-17	Jim Procter	JAL-2541 JAL-2822 release notes	commit \| commitdiff \| tree
2018-12-17	Jim Procter	JAL-3111 bump release 2.11 release to January 2019	commit \| commitdiff \| tree
2018-12-17	Jim Procter	Merge branch 'develop' into bug/JAL-2541cutRelocateFeatures	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 dataset reference tests now in Functional...	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 record mapping between unmarshalled sequence...	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 raise warning when a dataset reference exists...	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 more complex project test - where sequences...	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 resolve dataset for imported projects via...	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 failing test for legacy projects and fixing...	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 register existing dataset for new view	commit \| commitdiff \| tree
2018-12-14	Jim Procter	JAL-3171 failing test checking preservation of dataset	commit \| commitdiff \| tree
2018-11-20	Jim Procter	JAL-3127 Sequence ID Colour and nominal spanish translation	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 javadoc, don’t darken white when shading residues...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3156 JAL-3127 code tidy	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3156 javadoc re JAL-3127 and FIXME to make AlignmentI...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 drop redundant hidden representative sequences...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 JAL-2773 don’t need to call paintAlignment...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 tidier tree group colour -> view propagation	commit \| commitdiff \| tree
2018-11-09	Jim Procter	JAL-3127 polished setColor after review	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 always look up sequence ID colour from view...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 tidy up terminology in colour schemes help...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 updated colours menu and tree view documentation	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 reinstate ability to set sequence ID colour...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 use AlignViewportI.addGroup to create & propagate...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 use AlignViewportI.addGroup() to add group...	commit \| commitdiff \| tree
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